 | Authors: Amine Heddad, Andrea Krings, Markus Brameier and Bob MacCallum, Stockholm Bioinformatics Center, Stockholm University, Sweden. |
NucPred
Fetching Q91YE5 from www.uniprot.org...
The NucPred score for your sequence is 0.98 (see score help below)
1 MEMEANDHFNFTGLPPAPAASGLKPSPSSGEGLYTNGSPMNFPQQGKSLN 50
51 GDVNVNGLSTVSHTTTSGILNSAPHSSSTSHLHHPNVAYDCLWNYSQYPS 100
101 ANPGNNLKDPPLLSQFPGGQYPLNGILGGNRQPSSPSHNTNLRAGSQEFW 150
151 ANGTQSPMGLNFDSQELYDSFPDQNFEVMPNGPPSFFTSPQTSPMLGSSI 200
201 QTFAPSQDVSSDIHPDEAAEKELTSVVAENGTGLVGSLELEEEQPELKMC 250
251 GYNGSVSSVESLHQEVSVLVPDPTVSCLDDPSHLPDQLEDTPILSEDSLE 300
301 PFDSLAAEPVSGSLYGIDDAELMGAEDKLPLEGNPVISALDCPALSNANA 350
351 FSLLADDSQTSASIFVSPTSPPVLGESVLQDNSFGLNSCSDSEQEEIETQ 400
401 SSNFQRPLTEPAPDQPPSTQLHPAVSPTASPAASLTASAEISPAVSPVAS 450
451 SPVPPEVFVAVSPASSPALPAISLEASMTTPVTSPQGSPEPSPAAAFQTV 500
501 SPARKNVSSAPKARADREETTGGAVAVSGSGDVLKRRIATPEEVRLPLQH 550
551 GWRREVRIKKGSHRWQGETWYYGPCGKRMKQFPEVIKYLSRNVVHSVRRE 600
601 HFSFSPRMPVGDFFEERDTPEGLQWVQLSAEEIPSRIQAITGKRGRPRNN 650
651 EKAKNKEVPKVKRGRGRPPKIKMPELLNKTDNRLPKKLETQEILSEDDKA 700
701 KMTKNKKKMRQKVQRGESQTPVQGQARNKRKQDTKSLKQKDTKKKLKAEK 750
751 EKMKTKQEKLKEKVKREKKEKVKAKGKEGPRARPSCRADKTLATQKRLEE 800
801 QQRQQAILEEMKKPTEGMCLSDHQPLPDFTRIPGLTLSSRAFSDCLTIVE 850
851 FLHSFGKVLGFDLTKDVPSLGVLQEGLLCQGDSLDKVQDLLVRLLKAALH 900
901 DPGLPPYCQSLKILGEKMSEIPLTRDNVSEILRCFLMAYRVEPPFCDSLR 950
951 TQPFQAQPPQQKAAILAFLVHELNSSTIIINEIDKTLESVSSCRKNKWIV 1000
1001 EGRLRRLKTALAKRTGRPEVMMEGAEDGLGRRRSSRIMEETSGIEEEEEE 1050
1051 ENTTAVHGRRGRKEGEIDVAASSIPELERHIEKLSKRQLFFRKKLLHSSQ 1100
1101 MLRAVSLGQDRYRRHYWVLPYLAGIFVEGSEGSTVTEDEIKQETESLMEV 1150
1151 VTSTPSSARASVKRELTGSNASTSPARSRGRPRKPKPGSLQPQHLQSTIR 1200
1201 ECDSEQAQTQVHPEPQPQLQAPTQPHLQPSSGFLEPEGSPFSLGQSQHDL 1250
1251 SQSAFLSWLSQTQSHNSLLSSSVLTPDSSPGKLDSAPSQSLEEPEPDEAQ 1300
1301 SCPGPQGPWFNFSAQIPCDAAPTPPPAVSEDQPTPSLQLLASSKPMNTPG 1350
1351 AANPCSPVQLSSTHLPGGTPKRLSGDSEEMSQSPTGLGQPKRRGRPPSKF 1400
1401 FKQVEQHYLTQLTAQPIPPEMCSGWWWIRDPETLDVLLKALHPRGIREKA 1450
1451 LHKHLSKHKDFLQEVCLQPLTDPIFEPNELPALEEGVMSWSPKEKTYETD 1500
1501 LAVLQWVEELEQRVVLSDLQIRGWTCPTPDSTREDLTYCEHLPDSPEDIP 1550
1551 WRGRGREGTVPQRQNNNPLDLAVMRLAVLEQNVERRYLREPLWAAHEVVV 1600
1601 EKALLSTPNGAPDGTSTEISYEITPRVRVWRQTLERCRSAAQVCLCMGQL 1650
1651 ERSIAWEKSVNKVTCLVCRKGDNDEFLLLCDGCDRGCHIYCHRPKMEAVP 1700
1701 EGDWFCAVCLSQQVEEEYTQRPGFPKRGQKRKSSFPLTFPEGDSRRRMLS 1750
1751 RSRDSPAVPRYPEDGLSPPKRRRHSMRSHHSDLTFCEIILMEMESHDAAW 1800
1801 PFLEPVNPRLVSGYRRVIKNPMDFSTMRERLLRGGYTSSEEFAADALLVF 1850
1851 DNCQTFNEDDSEVGKAGHVMRRFFESRWEEFYQGKQANL 1889
Positively and negatively influencing subsequences are coloured according to the following scale:
(non-nuclear) negative ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| positive (nuclear)
What does the NucPred score mean?
| You have to decide on a NucPred score threshold. Sequences which score greater than or equal to this threshold are predicted to spend some time in the nucleus. Higher thresholds yield fewer predicted nuclear proteins, but these predictions are more accurate (you can have higher confidence in them). The table below gives more details of the performance of NucPred estimated using the sequences it was trained on (by cross-validation). Another benchmark is available in the Bioinformatics 2007 paper. |
| NucPred score threshold | Specificity | Sensitivity |
| see above | fraction of proteins predicted to be nuclear that actually are nuclear | fraction of true nuclear proteins that are predicted (coverage) |
| 0.10 | 0.45 | 0.88 |
| 0.20 | 0.52 | 0.83 |
| 0.30 | 0.57 | 0.77 |
| 0.40 | 0.63 | 0.69 |
| 0.50 | 0.70 | 0.62 |
| 0.60 | 0.71 | 0.53 |
| 0.70 | 0.81 | 0.44 |
| 0.80 | 0.84 | 0.32 |
| 0.90 | 0.88 | 0.21 |
| 1.00 | 1.00 | 0.02 |
| Sequences which score >= 0.8 with NucPred and which
are predicted by PredictNLS to contain an NLS have been shown to be 93% correct with a coverage of 16%. (PredictNLS by itself is 87% correct with 26% coverage on the same data.) |
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